Resource Type:
Polypeptide
Name:
DCAR_030236
Identifier:
DCAR_030236.mRNA-protein
Sequence:
MKRDHPHPHPLPHPQPNQPSFSDCPGGSSSTITDNIYSPGKSKMPWNDCE
QDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDT
VHYNPSDLSSWLESMIGELNPPEIGTQSSIIFDDSVSDYDLKAIPGKAVF
TNQNQNQPVCKKQKTVALPAVSSPWPVSSVETQPVQVLVDSQENGVRLVH
TLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRI
YRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVH
VIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGW
KLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQL
LARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTL
FDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVER
HEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGC
LMLGWHTRPLITTSAWKLSG*
Sequence Length:
571
Sequence Checksum:
03d051fe0615757483a71d9a75f36bbc
View location in JBrowse:
Organism:
Relationship:
| Relationships |
|---|
| The polypeptide, DCAR_030236, derives from mRNA, DCAR_030236. |
Blast Results:
The following BLAST results are available for this feature:
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Analysis Date: 2021-12-09
Analysis Name: DCAR peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 20
Analysis Date: 2021-12-09
Analysis Name: DCAR peptide blastp to SwissProt and TrEMBL without DCAR
Total hits: 20
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A3S8TLK6 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 882.093 bits (2278), Expect = 0.000e+0
Identity = 456/591 (77.16%), Postives = 494/591 (83.59%), Query Frame = 0
Match: A0A3S8TLK6 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 882.093 bits (2278), Expect = 0.000e+0
Identity = 456/591 (77.16%), Postives = 494/591 (83.59%), Query Frame = 0
Query: 1 MKRDHPHPHPLPHPQPNQPSFSDCPGGSSSTITDN---IYSPGKSKMPWNDCEQDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDTVHYNPSDLSSWLESMIGELNPPEIG---------TQSSIIFDDSVS-DYDLKAIPGKAVF--TNQNQNQPVCKKQKTVALPAVSSPW--PVSSVE--TQPVQ--VLVDSQENGVRLVHTLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVHVIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGWKLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQLLARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVERHEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGCLMLGWHTRPLITTSAWKLSG 570
MKRD+P QPN SFSDC GG+S + + N +YS GKSKM W + EQDAGVDELLA+LGYKV+SSDM +VA+KL+HLEE MGQA ++G++ L DTVHYNPSDLSSWLESMI ELNPP + + IIFDDS S DYDLKAIPG AV+ Q+ P K+ KT+ P S W PV S + +P + VLVDSQENGVRLVHTLMACAEAVQ N LK+AEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAF D+L+MHFYETCPYLKFAHFTANQAILEAFADKK VHVIDFSMKQGMQWPALMQALALRP GPP+FRLTGIGPPSHD TDHLQEVGWKLAQ AETIHV+FEYRGFVAN+L+DLDASMLDLREGETVAVNSVFE+HQLLARPG IEKVM+AV +MKPEIVTVVEQEANHNG VFLDRFTESLHYYSTLFDSLESCG GV+ VSNQDKVMSEVFLGRQICN+V CEGVDR ERHE L QW RF++AGFE VHLGSNAFKQASMLLALFAGGDGYRVEE EGCLMLGWHTRPLITTSAWKLSG
Sbjct: 1 MKRDYP--------QPNHISFSDCGGGTSGSSSVNHSGVYSNGKSKM-WEETEQDAGVDELLALLGYKVRSSDMAEVAQKLEHLEEVMGQAQEDGLSHLACDTVHYNPSDLSSWLESMITELNPPLANDLFLSPAESSTNKIIFDDSSSCDYDLKAIPGNAVYPPIVQSPVPPPNKRFKTMC-PTNPSIWQTPVQSQQHPNEPSRSVVLVDSQENGVRLVHTLMACAEAVQQNKLKVAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFADLLEMHFYETCPYLKFAHFTANQAILEAFADKKRVHVIDFSMKQGMQWPALMQALALRPGGPPTFRLTGIGPPSHDNTDHLQEVGWKLAQLAETIHVEFEYRGFVANSLADLDASMLDLREGETVAVNSVFEIHQLLARPGAIEKVMAAVKEMKPEIVTVVEQEANHNGLVFLDRFTESLHYYSTLFDSLESCGG---GVEDGGPVSNQDKVMSEVFLGRQICNVVGCEGVDRFERHETLGQWRIRFDAAGFEAVHLGSNAFKQASMLLALFAGGDGYRVEEKEGCLMLGWHTRPLITTSAWKLSG 578
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A3Q8TLE0 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 864.759 bits (2233), Expect = 0.000e+0
Identity = 447/592 (75.51%), Postives = 479/592 (80.91%), Query Frame = 0
Match: A0A3Q8TLE0 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 864.759 bits (2233), Expect = 0.000e+0
Identity = 447/592 (75.51%), Postives = 479/592 (80.91%), Query Frame = 0
Query: 1 MKRDHPHPHPLPHPQPNQPSFS-DC---PGGSSSTITDNIYSPGKSKMPWNDCEQDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDTVHYNPSDLSSWLESMIGELNPPEIGTQ----------SSIIFDDSVSDYD-LKAIPGKAVFTNQNQNQ-PVCKKQKTVALPAVSSPWPV-SSVETQPVQ-----VLVDSQENGVRLVHTLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVHVIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGWKLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQLLARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVERHEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGCLMLGWHTRPLITTSAWKLSG 570
MKRD+P QPN +FS DC GGSSS +YS GKSKM W + EQDAGVDELLAVLGYKV+SSDM DVA+KL+HLEE MGQA ++G++ L DTVHYNPSDLSSWLE MI EL+PP GT S IIFDDS S LKAIPGKAV+ Q+ P K+ + + A S WP + + QP + VLVDSQENGVRLVHTLMACAEAVQ +NLKLAE LVKQI FLAVSQIGAMRKVATYFAEALA+RIYRLYPQ QDSAF D+L MHFYETCPYLKFAHFTANQAILEAF DKK VHVIDFSMKQG QWPALMQALALRP GPP+FRLTGIGPPSHD TDHLQ+VGWKLAQFAETIHVKFEY GFVAN+L+DLDASMLDLREGETVAVNSVFE HQLLARPG IEKVMSAV +MKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCG G SN+DKVMSEVFLGRQICN+VACEGVDRVERHE L QW RF S GF+ VHLGSNAFKQASMLLALFAGGDGYRVEE+EGCLMLGWHTRPLI TSAWKLSG
Sbjct: 1 MKRDYP--------QPNHSTFSTDCGTGTGGSSSVNNSGVYSNGKSKM-WEETEQDAGVDELLAVLGYKVRSSDMADVAQKLEHLEEVMGQAQEDGLSHLACDTVHYNPSDLSSWLELMISELDPPPPGTDPFLAHAELSTSKIIFDDSSSSDYDLKAIPGKAVYPTTIQSPLPPPNKKLKITISAAPSVWPTPAQSQLQPKEHSQSVVLVDSQENGVRLVHTLMACAEAVQHDNLKLAEVLVKQIAFLAVSQIGAMRKVATYFAEALAQRIYRLYPQTPQDSAFADLLLMHFYETCPYLKFAHFTANQAILEAFDDKKSVHVIDFSMKQGTQWPALMQALALRPGGPPTFRLTGIGPPSHDNTDHLQDVGWKLAQFAETIHVKFEYSGFVANSLADLDASMLDLREGETVAVNSVFEFHQLLARPGAIEKVMSAVKEMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCG-------GGGSASNEDKVMSEVFLGRQICNVVACEGVDRVERHETLGQWRSRFGSGGFKAVHLGSNAFKQASMLLALFAGGDGYRVEENEGCLMLGWHTRPLIATSAWKLSG 576
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A3S8TLJ9 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 848.966 bits (2192), Expect = 0.000e+0
Identity = 444/592 (75.00%), Postives = 477/592 (80.57%), Query Frame = 0
Match: A0A3S8TLJ9 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 848.966 bits (2192), Expect = 0.000e+0
Identity = 444/592 (75.00%), Postives = 477/592 (80.57%), Query Frame = 0
Query: 1 MKRDHPHPHPLPHPQPNQPSFS-DCPGGSSSTITDN---IYSPGKSKMPWNDCEQDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDTVHYNPSDLSSWLESMIGELNPPEIGTQ----------SSIIFDDSVSDYD-LKAIPGKAVFTNQNQNQ-PVCKKQKTVALPAVSSPWPV-SSVETQPVQ-----VLVDSQENGVRLVHTLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVHVIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGWKLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQLLARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVERHEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGCLMLGWHTRPLITTSAWKLSG 570
MKRD+P QPN +FS DC GG+ + + N +YS GKSKM W + EQDAGVDELLAVLGYKV+SSDM DVA+KL+HLEE MGQA ++G++ L DTVHYNPSDLSSWLESMI EL+PP GT S IIFDDS S LKAIPGKAV+ Q+ P K+ + A S WP + + QP + VLVDSQENGVRLVHTLMACAEAVQ +NLKLAE LVKQI FLAVSQIGAMRKVATYFAEALARRIYRLYPQ QDSAF D+L MHFYETCPYLKFAHFTANQAILEAF DKK VHVIDFSMKQG QWPALMQALALRP GPP+FRLTGIGPPSHD TDHLQ+VG KLAQFAETIHVKFEY GFVAN+L+DLDASMLDLREGETVAVNSVFE HQLLA PG IEKVM+AV +MKPEIVTVVEQEANHNGPVFL RFTESLHYYSTLFDSLESCG G SNQDKVMSEVFLGRQICN+VACEGVDRVERHE L QW RF S GFE VHLGSNAFKQASMLLA+FAGGDGYRVEE+EGCLMLGWHTRPLI TSAWKLSG
Sbjct: 1 MKRDYP--------QPNHSTFSTDCGGGTGGSSSVNNSGVYSNGKSKM-WEETEQDAGVDELLAVLGYKVRSSDMADVAQKLEHLEEVMGQAQEDGLSHLACDTVHYNPSDLSSWLESMISELDPPPPGTDPFLAHAELSTSKIIFDDSSSSDYDLKAIPGKAVYPTTIQSPLPPPNKKLKITSSAAPSIWPTPAQSQLQPKEHSQSVVLVDSQENGVRLVHTLMACAEAVQHDNLKLAEVLVKQIAFLAVSQIGAMRKVATYFAEALARRIYRLYPQTPQDSAFADLLLMHFYETCPYLKFAHFTANQAILEAFDDKKRVHVIDFSMKQGTQWPALMQALALRPGGPPTFRLTGIGPPSHDNTDHLQDVGCKLAQFAETIHVKFEYSGFVANSLADLDASMLDLREGETVAVNSVFEFHQLLAHPGAIEKVMAAVKEMKPEIVTVVEQEANHNGPVFLHRFTESLHYYSTLFDSLESCG-------GGGPASNQDKVMSEVFLGRQICNVVACEGVDRVERHETLGQWRSRFGSGGFEAVHLGSNAFKQASMLLAVFAGGDGYRVEENEGCLMLGWHTRPLIATSAWKLSG 576
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6ZY23 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 823.928 bits (2127), Expect = 0.000e+0
Identity = 420/605 (69.42%), Postives = 468/605 (77.36%), Query Frame = 0
Match: A0A5B6ZY23 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 823.928 bits (2127), Expect = 0.000e+0
Identity = 420/605 (69.42%), Postives = 468/605 (77.36%), Query Frame = 0
Query: 1 MKRDHPHPHPLPHPQPNQPSFSDCPGGSSSTITDNIYSPGKSKMPWNDCEQDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDTVHYNPSDLSSWLESMIGELNP-PEIGTQSSII----------------------------FDDSVSDYDLKAIPGKAVFTNQNQNQ-------PVCKKQKTVALPAVSSPWPVSSVETQPVQVLVDSQENGVRLVHTLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVHVIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGWKLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQLLARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVERHEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGCLMLGWHTRPLITTSAWKLS 569
MKRDH P P+ P + GS + GK+KM + EQ AGVDE LAVLGYKVKSSDM +VA+KL+ LE+AMG ++G++QL SDTVHYNPSDLSSWLESMI ELNP P + S+++ F+DS DYDL AIPGKAV+ N+ TV + + + + T+PV +LVDSQENG+RLVH LMACAEAVQ +NLKLAE LVKQIGFLAVSQ GAMRKVATYFAEALARRIYRLYPQN DS F+D+LQMHFYETCPYLKFAHFTANQAILEAFADKK VHVIDFSMKQGMQWPALMQALALRP GPP+FRLTGIGPPSHD TDHLQEVGWKLAQ A+TIHVKFEYRGFVAN+L+DLDASMLDLREGE+VAVN+VFELHQLLARPG IEKV+SAV +MKPEI+TVVEQEAN+NGPVFLDRFTESLHYYSTLFDSLE CG + S V+NQDK+MSEV+LG+QICN+VACEG DRVERHE L QW RF SAGFEPVHLGSNAFKQASMLLALF GGDGYRVEE++GCLMLGWHTRPLI TSAWKLS
Sbjct: 1 MKRDH---RPPPYQDPCGGGGTGAGSGSGGGCSMGAAGNGKAKM-CEETEQSAGVDEFLAVLGYKVKSSDMAEVAQKLEQLEQAMGNVQEDGLSQLASDTVHYNPSDLSSWLESMISELNPLPNFDSSSTLLPPPQTQPIVDDAFLAPAESSTVTSSTRLFEDSSPDYDLTAIPGKAVYPQIQSNKRSKLNPSSASSSSTTVGVWGIPNESMLPGQSTRPV-ILVDSQENGIRLVHALMACAEAVQQDNLKLAEVLVKQIGFLAVSQAGAMRKVATYFAEALARRIYRLYPQNHHDSTFSDLLQMHFYETCPYLKFAHFTANQAILEAFADKKHVHVIDFSMKQGMQWPALMQALALRPGGPPTFRLTGIGPPSHDNTDHLQEVGWKLAQLADTIHVKFEYRGFVANSLADLDASMLDLREGESVAVNTVFELHQLLARPGAIEKVLSAVKEMKPEILTVVEQEANNNGPVFLDRFTESLHYYSTLFDSLEGCGGSSSP------VANQDKIMSEVYLGKQICNVVACEGPDRVERHETLDQWRSRFGSAGFEPVHLGSNAFKQASMLLALFNGGDGYRVEENDGCLMLGWHTRPLIATSAWKLS 594
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B6ZYL1 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 812.757 bits (2098), Expect = 0.000e+0
Identity = 405/560 (72.32%), Postives = 451/560 (80.54%), Query Frame = 0
Match: A0A5B6ZYL1 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 812.757 bits (2098), Expect = 0.000e+0
Identity = 405/560 (72.32%), Postives = 451/560 (80.54%), Query Frame = 0
Query: 41 KSKMPWNDCEQDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDTVHYNPSDLSSWLESMIGELNP-------------------------PEIGTQSSIIFDDSVSDYDLKAIPGKAVFTNQNQNQPVCKKQKTVALPAVSSPWPVSSVETQPVQ------VLVDSQENGVRLVHTLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVHVIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGWKLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQLLARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVERHEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGCLMLGWHTRPLITTSAWKLS 569
K+KM W + EQDAGVDELLAVLGY+VKSSDM +VA+KL+ LEE +G ++G++QL SDTVHYNPSD+SSWLESMI ELNP I T S IF+DS S+YDL AIPGKAV+ Q Q+ P ++ P V W + + T+P VLVDSQENG+RLVH LMACAEAVQ NLKLAE LVKQIGFLAV+Q GAMRKVATYFA+ALARRIYRLYPQ DS F+D+LQ+HFYETCPYLKFAHFTANQAILEAFA+KK VHVIDFSMKQG+QWPALMQALALRP GPP+FRLTGIGPPSHD TD LQEVGWKLAQ AET+HVKFEYRGFVAN+L+DLDASMLDLREGE VAVNSVFE HQLLARPG IEKV+SAV ++KPEI+TVVE+EANHNG VFLDRFTESLHYYSTLFDSLE CG + S V+NQDK+MSEV+LG+QICN+VACEG DRVERHE L QW RF SAGFEPVHLGSNAFKQASMLLALF GGDGYRVEE++GCLMLGWHTRPLI TSAWKLS
Sbjct: 39 KAKM-WEETEQDAGVDELLAVLGYQVKSSDMAEVAQKLEQLEEVLGHVEEDGLSQLASDTVHYNPSDISSWLESMITELNPLPNLDSSATLPPPPPAQIDDLFLESSTITTDHSKIFEDSSSNYDLTAIPGKAVYP-QIQSPPTPPNKRLKPSPGV---WGLPNESTRPAAESARPVVLVDSQENGIRLVHALMACAEAVQQENLKLAEVLVKQIGFLAVAQAGAMRKVATYFADALARRIYRLYPQTHHDSTFSDLLQIHFYETCPYLKFAHFTANQAILEAFANKKHVHVIDFSMKQGVQWPALMQALALRPGGPPTFRLTGIGPPSHDNTDRLQEVGWKLAQLAETVHVKFEYRGFVANSLADLDASMLDLREGEAVAVNSVFEFHQLLARPGSIEKVLSAVKEIKPEILTVVEEEANHNGSVFLDRFTESLHYYSTLFDSLEGCGGSSSP------VANQDKIMSEVYLGKQICNVVACEGPDRVERHETLDQWRSRFGSAGFEPVHLGSNAFKQASMLLALFNGGDGYRVEENDGCLMLGWHTRPLIATSAWKLS 587
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7A1A7 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 811.987 bits (2096), Expect = 0.000e+0
Identity = 419/605 (69.26%), Postives = 463/605 (76.53%), Query Frame = 0
Match: A0A5B7A1A7 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 811.987 bits (2096), Expect = 0.000e+0
Identity = 419/605 (69.26%), Postives = 463/605 (76.53%), Query Frame = 0
Query: 1 MKRDHPHPHPLPHPQPNQPSFSDCPGGSSSTITDNIYSPGKSKMPWNDCEQDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDTVHYNPSDLSSWLESMIGELNP-PEIGTQSSII----------------------------FDDSVSDYDLKAIPGKAVFTNQNQNQ-------PVCKKQKTVALPAVSSPWPVSSVETQPVQVLVDSQENGVRLVHTLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVHVIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGWKLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQLLARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVERHEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGCLMLGWHTRPLITTSAWKLS 569
MKRDH P P P + S GG S N GK+KM + EQ AGVDE LAVLGYKVKSSDM +VA+KL+ LE+AMG ++G++QL SDTVHYNPSDLSSWLESMI ELNP P + S+++ F+DS DYDL AIPGKAV+ N+ TV + + + + T+PV +LVDSQENG+RLVH LMACAEAVQ +NLKLAE LVKQIGFLAVSQ GAMRKVATYFAEALARRIYRLYPQN DS F+D+LQMHFYETCPYLKFAHFTANQAILEAFADKK VHVIDFSMKQGMQWPALMQALALRP GPP+FRLTGIGPPSHD TDHLQEVGWKLAQ A+TIHVKFEYRGFVAN+L+DLDASMLDLREGE VAVNSVFE HQLLARPG IEKV+SAV ++KPEI+TVVE+EANHNG VFLDRFTESLHYYSTLFDSLE CG + S + +QDK+MSEV+LGRQICN+VACEG DRVERHE L QW RF SAGFEPVHLGSNAFKQASMLLALF GDGYRVEE+ GCLMLGWHTRPLI TSAWKLS
Sbjct: 1 MKRDH-RPPPYQDPCGGTGAGSGSGGGCSMGAAAN----GKAKM-CEETEQSAGVDEFLAVLGYKVKSSDMAEVAQKLEQLEQAMGNVQEDGLSQLASDTVHYNPSDLSSWLESMISELNPLPNFDSSSTLLPPPQTQPIVDDAFLAPAESSTVTSSTRLFEDSSPDYDLTAIPGKAVYPQIQSNKRSKLNPSSASSSSTTVGVWGIPNESMLPGQLTRPV-ILVDSQENGIRLVHALMACAEAVQQDNLKLAEVLVKQIGFLAVSQAGAMRKVATYFAEALARRIYRLYPQNHHDSTFSDLLQMHFYETCPYLKFAHFTANQAILEAFADKKHVHVIDFSMKQGMQWPALMQALALRPGGPPTFRLTGIGPPSHDNTDHLQEVGWKLAQLADTIHVKFEYRGFVANSLADLDASMLDLREGEAVAVNSVFEFHQLLARPGSIEKVLSAVKEIKPEILTVVEEEANHNGSVFLDRFTESLHYYSTLFDSLEGCGGSSSPAN------DQDKLMSEVYLGRQICNVVACEGSDRVERHETLAQWRTRFGSAGFEPVHLGSNAFKQASMLLALFNSGDGYRVEENNGCLMLGWHTRPLIATSAWKLS 592
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A5B7A360 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 810.061 bits (2091), Expect = 0.000e+0
Identity = 410/600 (68.33%), Postives = 461/600 (76.83%), Query Frame = 0
Match: A0A5B7A360 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 810.061 bits (2091), Expect = 0.000e+0
Identity = 410/600 (68.33%), Postives = 461/600 (76.83%), Query Frame = 0
Query: 1 MKRDHPHPHPLPHPQPNQPSFSDCPGGSSSTITDNIYSPGKSKMPWNDCEQDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDTVHYNPSDLSSWLESMIGELNP-------------------------PEIGTQSSIIFDDSVSDYDLKAIPGKAVFTNQNQNQPVCKKQKTVALPAVSSPWPVSSVETQPVQ------VLVDSQENGVRLVHTLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVHVIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGWKLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQLLARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVERHEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGCLMLGWHTRPLITTSAWKLS 569
MKRD+ P P +P + ++ + K+KM W + EQDAGVDELLAVLGY+VKSSDM +VA+KL+ LEE +G ++G++QL SDTVHYNPSD+SSWLESMI ELNP I T S IF+DS S+YDL AIPGKAV+ Q Q+ P ++ P V W + + T+P VLVDSQENG+RLVH LMACAEAVQ NLKLAE LVKQIGFLAV+Q GAMRKVATYFA+ALARRIYRLYPQ DS F+D+LQ+HFYETCPYLKFAHFTANQAILEAFA+KK VHVIDFSMKQG+QWPALMQALALRP GPP+FRLTGIGPPSHD TD LQEVGWKLAQ AET+HVKFEYRGFVAN+L+DLDASMLDLREGE VAVNSVFE HQLLARPG IEKV+SAV ++KPEI+TVVE+EANHNG VFLDRFTESLHYYSTLFDSLE CG + S + +QDK+MSEV+LGRQICN+VACEG DRVERHE L QW RF SAGFEPVHLGSNAFKQASMLLALF GDGYRVEE+ GCLMLGWHTRPLI TSAWKLS
Sbjct: 1 MKRDYRCPPP--YPDTCGGGGGSGSSSGGAGGDYSMAADRKAKM-WEETEQDAGVDELLAVLGYQVKSSDMAEVAQKLEQLEEVLGHVEEDGLSQLASDTVHYNPSDISSWLESMITELNPLPNLDSSATLPPPPPPQIDDLFLESSTITTDHSKIFEDSSSNYDLTAIPGKAVYP-QIQSPPTPPNKRLKPSPGV---WGLPNESTRPAAESARPVVLVDSQENGIRLVHALMACAEAVQQENLKLAEVLVKQIGFLAVAQAGAMRKVATYFADALARRIYRLYPQTHHDSTFSDLLQIHFYETCPYLKFAHFTANQAILEAFANKKHVHVIDFSMKQGVQWPALMQALALRPGGPPTFRLTGIGPPSHDNTDRLQEVGWKLAQLAETVHVKFEYRGFVANSLADLDASMLDLREGEAVAVNSVFEFHQLLARPGSIEKVLSAVKEIKPEILTVVEEEANHNGSVFLDRFTESLHYYSTLFDSLEGCGGSSSPAN------DQDKLMSEVYLGRQICNVVACEGSDRVERHETLAQWRTRFGSAGFEPVHLGSNAFKQASMLLALFNSGDGYRVEENNGCLMLGWHTRPLIATSAWKLS 587
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A4S4DJS2 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 808.135 bits (2086), Expect = 0.000e+0
Identity = 416/558 (74.55%), Postives = 452/558 (81.00%), Query Frame = 0
Match: A0A4S4DJS2 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 808.135 bits (2086), Expect = 0.000e+0
Identity = 416/558 (74.55%), Postives = 452/558 (81.00%), Query Frame = 0
Query: 50 EQDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDTVHYNPSDLSSWLESMIGELNP-PE------------IGTQSSI-----------------IFDDSVSDYDLKAIPGKAVFTNQNQNQPVCKKQKTVALPAVSSP--------WPVSSVETQPVQVLVDSQENGVRLVHTLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVHVIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGWKLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQLLARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVERHEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGCLMLGWHTRPLITTSAWKLS 569
E+DAGVDELLAVLGYKVK+SDM DVA+KL+ LEE MG A ++G++ L DTVHYNPSDLSSWLESMI ELNP PE I + S++ IF DS SDYDLKAIPGKAV++ Q QP K+ K + + SS W S T+P+ VLVDSQENG+RLVHTLMACAEAVQ +N+KLAEALVKQIGFLAVSQ G MRKVATYFAEALARRIYRLYPQN QDSAF+D LQ+HFYETCPYLKFAHFTANQAILEAFA KK VHVIDFSMKQGMQWPALMQALALRP GPP+FRLTGIGPPSHD TDHLQEVGWKLAQ AETIHV+FE+RGFVAN+L+DLDASMLDLREGE VAVNSVFE HQLLARPG IEKV+SAV +MKPEI+TVVEQEANHNGPVFLDRFTESLHYYSTLFDSLE C G + V+NQDKVMSEV+LGRQICN+VACEG DRVERHE L QW RF SAGFE VHLGSNAFKQASMLLALF GGDGYRVEE+ GCLMLGW TRPLI TSAWKLS
Sbjct: 42 EEDAGVDELLAVLGYKVKASDMADVAQKLEQLEEVMGHAQEDGLSHLAFDTVHYNPSDLSSWLESMITELNPLPEFPPPVDDPFLAAIESSSTVTSVDTQNQYNQQNSYGRIFQDSSSDYDLKAIPGKAVYS---QIQPPNKRFKPSSPSSSSSVTSSMPLGMWAESIEPTRPM-VLVDSQENGIRLVHTLMACAEAVQQDNVKLAEALVKQIGFLAVSQAGTMRKVATYFAEALARRIYRLYPQNPQDSAFSDHLQIHFYETCPYLKFAHFTANQAILEAFATKKRVHVIDFSMKQGMQWPALMQALALRPGGPPTFRLTGIGPPSHDNTDHLQEVGWKLAQLAETIHVEFEFRGFVANSLADLDASMLDLREGEAVAVNSVFEFHQLLARPGAIEKVLSAVKEMKPEILTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLEGC-GGGGGGSPSPAVNNQDKVMSEVYLGRQICNVVACEGSDRVERHETLAQWRARFGSAGFESVHLGSNAFKQASMLLALFNGGDGYRVEENGGCLMLGWQTRPLIATSAWKLS 594
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2H4X2W5 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 808.135 bits (2086), Expect = 0.000e+0
Identity = 416/558 (74.55%), Postives = 452/558 (81.00%), Query Frame = 0
Match: A0A2H4X2W5 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 808.135 bits (2086), Expect = 0.000e+0
Identity = 416/558 (74.55%), Postives = 452/558 (81.00%), Query Frame = 0
Query: 50 EQDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDTVHYNPSDLSSWLESMIGELNP-PE------------IGTQSSI-----------------IFDDSVSDYDLKAIPGKAVFTNQNQNQPVCKKQKTVALPAVSSP--------WPVSSVETQPVQVLVDSQENGVRLVHTLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVHVIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGWKLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQLLARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVERHEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGCLMLGWHTRPLITTSAWKLS 569
E+DAGVDELLAVLGYKVK+SDM DVA+KL+ LEE MG A ++G++ L DTVHYNPSDLSSWLESMI ELNP PE I + S++ IF DS SDYDLKAIPGKAV++ Q QP K+ K + + SS W S T+P+ VLVDSQENG+RLVHTLMACAEAVQ +N+KLAEALVKQIGFLAVSQ G MRKVATYFAEALARRIYRLYPQN QDSAF+D LQ+HFYETCPYLKFAHFTANQAILEAFA KK VHVIDFSMKQGMQWPALMQALALRP GPP+FRLTGIGPPSHD TDHLQEVGWKLAQ AETIHV+FE+RGFVAN+L+DLDASMLDLREGE VAVNSVFE HQLLARPG IEKV+SAV +MKPEI+TVVEQEANHNGPVFLDRFTESLHYYSTLFDSLE C G + V+NQDKVMSEV+LGRQICN+VACEG DRVERHE L QW RF SAGFE VHLGSNAFKQASMLLALF GGDGYRVEE+ GCLMLGW TRPLI TSAWKLS
Sbjct: 42 EEDAGVDELLAVLGYKVKASDMADVAQKLEQLEEVMGHAQEDGLSHLAFDTVHYNPSDLSSWLESMITELNPLPEFPPPVDDPFLAAIESSSTVTSVDTQNQYNQQNSYGRIFQDSSSDYDLKAIPGKAVYS---QIQPPNKRFKPSSPSSSSSVTSSMPLGMWAESIEPTRPM-VLVDSQENGIRLVHTLMACAEAVQQDNVKLAEALVKQIGFLAVSQAGTMRKVATYFAEALARRIYRLYPQNPQDSAFSDHLQIHFYETCPYLKFAHFTANQAILEAFATKKRVHVIDFSMKQGMQWPALMQALALRPGGPPTFRLTGIGPPSHDNTDHLQEVGWKLAQLAETIHVEFEFRGFVANSLADLDASMLDLREGEAVAVNSVFEFHQLLARPGAIEKVLSAVKEMKPEILTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLEGC-GGGGGGSPSPAVNNQDKVMSEVYLGRQICNVVACEGSDRVERHETLAQWRARFGSAGFESVHLGSNAFKQASMLLALFNGGDGYRVEENGGCLMLGWQTRPLIATSAWKLS 594
BLAST of DCAR_030236 vs. ExPASy Swiss-Prot and TrEMBL without DCAR
Match: A0A2K1ZGG3 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 793.497 bits (2048), Expect = 0.000e+0
Identity = 407/611 (66.61%), Postives = 463/611 (75.78%), Query Frame = 0
Match: A0A2K1ZGG3 (DELLA protein {ECO:0000256|RuleBase:RU367159})
HSP 1 Score: 793.497 bits (2048), Expect = 0.000e+0
Identity = 407/611 (66.61%), Postives = 463/611 (75.78%), Query Frame = 0
Query: 1 MKRDHPHPHPLPHPQPNQPSFSDCPGGSSSTITDNIYSP--GKSKMPWNDCE---QDAGVDELLAVLGYKVKSSDMIDVAEKLQHLEEAMGQAHQEGITQLGSDTVHYNPSDLSSWLESMIGELNP--------------PEIGTQSSIIFDD-------------SVSDYDLKAIPGKAVFTNQNQNQPVCKKQKT----------VALPAVSSPWPVSSVETQPVQVLVDSQENGVRLVHTLMACAEAVQGNNLKLAEALVKQIGFLAVSQIGAMRKVATYFAEALARRIYRLYPQNSQDSAFTDMLQMHFYETCPYLKFAHFTANQAILEAFADKKMVHVIDFSMKQGMQWPALMQALALRPSGPPSFRLTGIGPPSHDGTDHLQEVGWKLAQFAETIHVKFEYRGFVANTLSDLDASMLDLREGETVAVNSVFELHQLLARPGGIEKVMSAVADMKPEIVTVVEQEANHNGPVFLDRFTESLHYYSTLFDSLESCGNNVSGVDGAEIVSNQDKVMSEVFLGRQICNIVACEGVDRVERHEPLTQWTDRFNSAGFEPVHLGSNAFKQASMLLALFAGGDGYRVEEHEGCLMLGWHTRPLITTSAWKLS 569
MKR+HP+ HP Q + PS G S+ST + +P GK+K+ W + E D G+DELLAVLGYKV+SSDM +VA+KL+ LEE MG A ++G++ L SD+VHYNPSDLS+WLESMI ELNP E T +SI F D S SDYDLK IPGKAVF+ + K+ KT ++ + +S+ T+PV VLVDSQENG+RLVH LMACAEAVQ +N LAEALVKQIGFLAVSQ G MRKVATYFAEALARRIY+L PQNS D + +D+LQ+HFYETCPYLKFAHFTANQAILEAF KK VHVIDFSM QGMQWPALMQALA+RP GPP+FRLTGIGPP+HD TDHLQEVGWKLAQ AETIHV+FEYRGFVAN+L+DLDASML+LR E+VAVNSVFELH+LL+RPG IEKV+S V MKPEIVTVVEQEANHNGP+FLDRFTESLHYYSTLFDSLE VS QDK+MSEV+LG+QICN+VACEG DRVERHE LTQW R SAGF PVHLGSNAFKQASMLLALFAGGDGYRVEE+ GCLMLGWHTRPLI TSAW+L+
Sbjct: 1 MKREHPNLHP---QQISDPSTLAAAGYSTST---SAMAPHNGKAKI-WEEGEGHQADGGMDELLAVLGYKVRSSDMAEVAQKLEQLEEVMGHAQEDGLSHLASDSVHYNPSDLSTWLESMISELNPNLNFDPSADSLLAPAESSTITSIDFSDHKHHQQQKLFEESSSSDYDLKVIPGKAVFSQTQIDSRESKRLKTDLYQTSSSSSLSSATTLGSFGISTESTRPV-VLVDSQENGIRLVHLLMACAEAVQESNFTLAEALVKQIGFLAVSQAGVMRKVATYFAEALARRIYKLCPQNSTDHSLSDILQIHFYETCPYLKFAHFTANQAILEAFEGKKRVHVIDFSMNQGMQWPALMQALAVRPGGPPAFRLTGIGPPAHDNTDHLQEVGWKLAQLAETIHVEFEYRGFVANSLADLDASMLELRPTESVAVNSVFELHKLLSRPGAIEKVLSVVKQMKPEIVTVVEQEANHNGPIFLDRFTESLHYYSTLFDSLEGS------------VSTQDKIMSEVYLGKQICNVVACEGPDRVERHETLTQWRTRLGSAGFAPVHLGSNAFKQASMLLALFAGGDGYRVEENNGCLMLGWHTRPLIATSAWRLN 591
| Match Name | Stats | Description |
|---|---|---|
| A0A3S8TLK6 | E-Value: 0.000e+0, PID: 77.16 | DELLA protein {ECO:0000256|RuleBase:RU367159}[more] |
| A0A3Q8TLE0 | E-Value: 0.000e+0, PID: 75.51 | DELLA protein {ECO:0000256|RuleBase:RU367159}[more] |
| A0A3S8TLJ9 | E-Value: 0.000e+0, PID: 75.00 | DELLA protein {ECO:0000256|RuleBase:RU367159}[more] |
| A0A5B6ZY23 | E-Value: 0.000e+0, PID: 69.42 | DELLA protein {ECO:0000256|RuleBase:RU367159}[more] |
| A0A5B6ZYL1 | E-Value: 0.000e+0, PID: 72.32 | DELLA protein {ECO:0000256|RuleBase:RU367159}[more] |
| A0A5B7A1A7 | E-Value: 0.000e+0, PID: 69.26 | DELLA protein {ECO:0000256|RuleBase:RU367159}[more] |
| A0A5B7A360 | E-Value: 0.000e+0, PID: 68.33 | DELLA protein {ECO:0000256|RuleBase:RU367159}[more] |
| A0A4S4DJS2 | E-Value: 0.000e+0, PID: 74.55 | DELLA protein {ECO:0000256|RuleBase:RU367159}[more] |
| A0A2H4X2W5 | E-Value: 0.000e+0, PID: 74.55 | DELLA protein {ECO:0000256|RuleBase:RU367159}[more] |
| A0A2K1ZGG3 | E-Value: 0.000e+0, PID: 66.61 | DELLA protein {ECO:0000256|RuleBase:RU367159}[more] |
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back to topAnalysis:
| Name | Description |
|---|---|
An orange, doubled-haploid, Nantes-type carrot (DH1) was used for genome sequencing. We used BAC end sequences and a newly developed linkage map with 2,075 markers to correct 135 scaffolds with one or more chimeric regions. The resulting v2.0 assembly spans 421.5 Mb and contains 4,907 scaffolds (N50 of 12.7 Mb), accounting for ∼90% of the estimated genome size of 473 Mb. The scaftig N50 of 31.2 kb is similar to those of other high-quality genome assemblies such as potato and pepper. About 86% (362 Mb) of the assembled genome is included in only 60 superscaffolds anchored to the nine pseudomolecules. The longest superscaffold spans 30.2 Mb, 85% of chromosome 4. There are a few different naming schemes for this assembly. First there is the Phytozome genome ID 388: The authors' sequences and gene predictions were also submitted to Phytozome, and can be accessed at this address: https://phytozome-next.jgi.doe.gov/info/Dcarota_v2_0 LNRQ01: These sequences were then assigned GenBank accession numbers starting at LNRQ01000001.1 which corresponds to DCARv2_Chr1, up to LNRQ01004826.1 which corresponds to an unincorporated contig, DCARv2_C10750146. These reside in bioproject PRJNA268187, which is a subproject of umbrella project PRJNA285926. Assembly GCA_001625215.1: The genome assembly was later defined an accession number GCA_001625215.1 for assembly ASM162521v1 which consists of only the 9 chromosome sequences and the plastid assembly, which have accession numbers from CM004278.1 to CM004286.1 for the chromosomes and CM004358.1 for the plastid. The mitochondrial genome was not included because it is classified as an incomplete sequence. RefSeq: The assembly was then later added to RefSeq, and there another new set of identifiers was defined from NC_030381.1 to NC_030389.1 for the chromosomes, and from NW_016089425.1 to NW_016094239.1 for unincorporated scaffolds and contigs. These reside in bioproject PRJNA326436. Note that NCBI substituted different assembled organellar genomes from different genotypes for the RefSeq records. The NCBI Sequence report lists the correspondences between the various naming methods Link to the LNRQ01000000.1 master record at NCBI Raw Reads: Link to SRA accessions used for the genome assembly This genome is available in the CarrotOmics Blast Search | |
This analysis is a blastp search of all of the DCAR V1.0 Gene Prediction polypeptide sequences against combined ExPASy SwissProt and TrEMBL databases from Nov. 17, 2021. Prior to performing the blast search, the database was filtered to remove organisms not in the Viridiplantae, and also filtered to remove these same DCAR gene predictions. | |
For gene model prediction, mobile element–related repeats were masked using RepeatMasker. De novo prediction using AUGUSTUS v2.5.5, GENSCAN v.1.1.0, and GlimmerHMM-3.0.1 was trained using model species A. thaliana and S. lycoperisum training sets. The protein sequences of S. lycoperisum, Solanum tuberosum, A. thaliana, Brassica rapa, and Oryza sativa were mapped to the carrot genome using TBLASTN (BLAST All 2.2.23) and analyzed with GeneWise version 2.2.0. Carrot ESTs were aligned to the genome using BLAT and analyzed with PASA to detect spliced gene models. RNA-seq reads from 20 DH1 libraries were aligned with TopHat 2.0.9. Transcripts were predicted by Cufflinks. All gene models produced by de novo prediction, protein homology searches, and prediction and transcript-based evidence were integrated using GLEAN v1.1. Putative gene functions were assigned using the best BLASTP match to SwissProt and TrEMBL databases. Gene motifs and domains were determined with InterProScan version 4.7 against the ProDom, PRINTS, Pfam, SMART, PANTHER, and PROSITE protein databases. GO IDs for each gene were obtained from the corresponding InterPro entries. All genes were aligned against KEGG (release 58) proteins. Data from this analysis can be viewed in JBrowse here. |